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Conserved domains on  [gi|446809893|ref|WP_000887149|]
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MULTISPECIES: transcription termination/antitermination protein NusG [Streptococcus]

Protein Classification

transcription termination/antitermination protein NusG( domain architecture ID 11415705)

transcription termination/antitermination protein NusG (N-Utilization Substance G) is involved in transcription elongation and termination in bacteria

CATH:  2.30.30.30|3.30.70.940
Gene Symbol:  nusG
Gene Ontology:  GO:0006353|GO:0032784|GO:0031564|GO:0006354
PubMed:  12198166|27899640|29887376
SCOP:  4002609

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
4-176 1.11e-60

Transcription termination/antitermination protein NusG [Transcription];


:

Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 185.80  E-value: 1.11e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   4 SFDKGWFVLQTYSGYENKVKENLLQRAQTynmldniLRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVV 83
Cdd:COG0250    2 SMEKRWYVVHTYSGYEKKVKENLERRIEG-------IEVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWYLV 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893  84 RNTPNVTGFVGShgnRSKPTPLLEEEIRSILISM--GQTVDVFDTNIKEGDVVQIIDGAFIGQEGRVVEI--ENNKVKLM 159
Cdd:COG0250   75 RNTPGVTGFVGF---GGKPAPLPDEEVERILARLeeGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVdpEKGRVKVL 151

                        170
                 ....*....|....*..
gi 446809893 160 INMFGSETQAELELYQV 176
Cdd:COG0250  152 VSIFGRETPVELDFSQV 168
 
Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
4-176 1.11e-60

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 185.80  E-value: 1.11e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   4 SFDKGWFVLQTYSGYENKVKENLLQRAQTynmldniLRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVV 83
Cdd:COG0250    2 SMEKRWYVVHTYSGYEKKVKENLERRIEG-------IEVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWYLV 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893  84 RNTPNVTGFVGShgnRSKPTPLLEEEIRSILISM--GQTVDVFDTNIKEGDVVQIIDGAFIGQEGRVVEI--ENNKVKLM 159
Cdd:COG0250   75 RNTPGVTGFVGF---GGKPAPLPDEEVERILARLeeGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVdpEKGRVKVL 151

                        170
                 ....*....|....*..
gi 446809893 160 INMFGSETQAELELYQV 176
Cdd:COG0250  152 VSIFGRETPVELDFSQV 168
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 9-176 2.96e-53

transcription termination/antitermination factor NusG; NusG proteins are transcription factors which are aparrently universal in prokaryotes (archaea and eukaryotes have homologs that may have related functions). The essential components of these factors include an N-terminal RNP-like (ribonucleoprotein) domain and a C-terminal KOW motif (pfam00467) believed to be a nucleic acid binding domain. In E. coli, NusA has been shown to interact with RNA polymerase and termination factor Rho. This model covers a wide variety of bacterial species but excludes mycoplasmas which are covered by a separate model (TIGR01956).The function of all of these NusG proteins is likely to be the same at the level of interaction with RNA and other protein factors to affect termination; however different species may utilize NusG towards different processes and in combination with different suites of affector proteins.In E. coli, NusG promotes rho-dependent termination. It is an essential gene. In Streptomyces virginiae and related species, an additional N-terminal sequence is also present and is suggested to play a role in butyrolactone-mediated autoregulation. In Thermotoga maritima, NusG has a long insert, fails to substitute for E. coli NusG (with or without the long insert), is a large 0.7 % of total cellular protein, and has a general, sequence non-specific DNA and RNA binding activity that blocks ethidium staining, yet permits transcription.Archaeal proteins once termed NusG share the KOW domain but are actually a ribosomal protein corresponding to L24p in bacterial and L26e in eukaryotes (TIGR00405). [Transcription, Transcription factors]


Pssm-ID: 273341 [Multi-domain]  Cd Length: 172  Bit Score: 167.09  E-value: 2.96e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893    9 WFVLQTYSGYENKVKENLLQRAQTYNMLDNILRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 88
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKKGKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   89 VTGFVGSHGNRSKPTPLleEEIRSILISMGQTVD--VFDTNIKEGDVVQIIDGAFIGQEGRVVEI--ENNKVKLMINMFG 164
Cdd:TIGR00922  81 VTGFVGSGGKPKALSED--EEVKNILNALEEGKDkpKPKIDFEVGEQVRVNDGPFANFTGTVEEVdyEKSKLKVSVSIFG 158

                         170
                  ....*....|..
gi 446809893  165 SETQAELELYQV 176
Cdd:TIGR00922 159 RETPVELEFSQV 170
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 9-117 3.24e-51

Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The N-Utilization Substance G (NusG) protein is involved in transcription elongation and termination in bacteria. NusG is essential in Escherichia coli and associates with RNA polymerase elongation and Rho-termination. Homologs of the NusG gene exist in all bacteria. The NusG N-terminal domain (NGN) is similar in all NusG homologs, but its C-terminal domain and the linker that separates these two domains are different. The domain organization of NusG suggests that the common properties of NusG and its homologs are due to their similar NGN domains.


Pssm-ID: 193580 [Multi-domain]  Cd Length: 107  Bit Score: 159.56  E-value: 3.24e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   9 WFVLQTYSGYENKVKENLLQRAQTYNMLDNILRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 88
Cdd:cd09891    2 WYVVHTYSGYENKVKENLEKRIESEGLEDYIGEVLVPTEEVVEVKNGKKKVKERKLFPGYVLVEMDMNDDTWHLVRNTPG 81

                         90       100
                 ....*....|....*....|....*....
gi 446809893  89 VTGFVGSHGnrsKPTPLLEEEIRSILISM 117
Cdd:cd09891   82 VTGFVGSGG---KPVPLSEEEVERILGQV 107
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 9-114 5.50e-39

In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, this domain may confer affinity for Spt4p.Spt4p


Pssm-ID: 197850 [Multi-domain]  Cd Length: 106  Bit Score: 128.64  E-value: 5.50e-39
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893     9 WFVLQTYSGYENKVKENLLQRAQTYNMLDNILRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 88
Cdd:smart00738   2 WYAVRTTSGQEKRVAENLERKAEALGLEDKIVSILVPTEEVKEIRRGKKKVVERKLFPGYIFVEADLEDEVWTAIRGTPG 81

                           90       100
                   ....*....|....*....|....*.
gi 446809893    89 VTGFVGSHGnrsKPTPLLEEEIRSIL 114
Cdd:smart00738  82 VRGFVGGGG---KPTPVPDDEIEKIL 104
NusG pfam02357
Transcription termination factor nusG;
7-114 2.66e-37

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 123.88  E-value: 2.66e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893    7 KGWFVLQTYSGYENKVKENLLQRAqtynmldniLRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNT 86
Cdd:pfam02357   1 KKWYVLQTYSGKEKKVKENLERQG---------IEVFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRST 71

                          90       100
                  ....*....|....*....|....*...
gi 446809893   87 PNVTGFVGSHGnrsKPTPLLEEEIRSIL 114
Cdd:pfam02357  72 PGVTGFVGGSG---KPTPIPDEEVERIL 96
antiterm_LoaP NF033641
antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The ...
 9-173 1.92e-26

antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The founding member, from Bacillus amyloliquefaciens, was shown to serve as an antiterminator for the transcription of genes involved in antibiotic biosynthesis.


Pssm-ID: 468124 [Multi-domain]  Cd Length: 166  Bit Score: 98.61  E-value: 1.92e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   9 WFVLQTYSGYENKVKENLLQRAQtynmlDNILRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 88
Cdd:NF033641   1 WYVLFVRTGKEEKVKKLLNKLFD-----KELLRCFVPKRKLPERKQGKWYKVIKPLFPGYVFIETDMNEELYYKLKKIPG 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893  89 VTGFVGSHGNRskPTPLLEEEIRSI--LISMGQTVDvFDTNIKEGDVVQIIDGAFIGQEGRVVEIE--NNKVKLMINMFG 164
Cdd:NF033641  76 IIRLLGNEGDE--FSPIPEEEMEFLlkLLNDDDIIE-YSKGYIEGDKVIVISGPLKGLEGIIKKIDkrKRRAKIELNFMG 152


                 ....*....
gi 446809893 165 SETQAELEL 173
Cdd:NF033641 153 EERLVDVGI 161
rfaH PRK09014
transcription/translation regulatory transformer protein RfaH;
27-143 1.12e-05

transcription/translation regulatory transformer protein RfaH;


Pssm-ID: 181611 [Multi-domain]  Cd Length: 162  Bit Score: 43.34  E-value: 1.12e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893  27 LQRAQTYnmLDNiLRVEIPTQTVNVEK--NGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPNVTGFVGsHGNRskPTP 104
Cdd:PRK09014  14 LQRAQEH--LER-QGVECLYPMITLEKivRGKRTEVSEPLFPNYLFVEFDPEVIHTTTIRSTRGVSHFVR-FGAQ--PAI 87

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 446809893 105 LLEEEIRSILISMGQTVDVFDTNiKEGDVVQIIDGAFIG 143
Cdd:PRK09014  88 VPSDVIYQLSVYKPEKIVDPETP-KPGDKVIITEGAFEG 125
 
Name Accession Description Interval E-value
NusG COG0250
Transcription termination/antitermination protein NusG [Transcription];
4-176 1.11e-60

Transcription termination/antitermination protein NusG [Transcription];


Pssm-ID: 440020 [Multi-domain]  Cd Length: 171  Bit Score: 185.80  E-value: 1.11e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   4 SFDKGWFVLQTYSGYENKVKENLLQRAQTynmldniLRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVV 83
Cdd:COG0250    2 SMEKRWYVVHTYSGYEKKVKENLERRIEG-------IEVFVPTEEVVEIKNGKKKTVERPLFPGYVFVRMDLTDESWYLV 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893  84 RNTPNVTGFVGShgnRSKPTPLLEEEIRSILISM--GQTVDVFDTNIKEGDVVQIIDGAFIGQEGRVVEI--ENNKVKLM 159
Cdd:COG0250   75 RNTPGVTGFVGF---GGKPAPLPDEEVERILARLeeGEEKPRPKVDFEVGDRVRITDGPFAGFEGTVEEVdpEKGRVKVL 151

                        170
                 ....*....|....*..
gi 446809893 160 INMFGSETQAELELYQV 176
Cdd:COG0250  152 VSIFGRETPVELDFSQV 168
nusG TIGR00922
transcription termination/antitermination factor NusG; NusG proteins are transcription factors ...
 9-176 2.96e-53

transcription termination/antitermination factor NusG; NusG proteins are transcription factors which are aparrently universal in prokaryotes (archaea and eukaryotes have homologs that may have related functions). The essential components of these factors include an N-terminal RNP-like (ribonucleoprotein) domain and a C-terminal KOW motif (pfam00467) believed to be a nucleic acid binding domain. In E. coli, NusA has been shown to interact with RNA polymerase and termination factor Rho. This model covers a wide variety of bacterial species but excludes mycoplasmas which are covered by a separate model (TIGR01956).The function of all of these NusG proteins is likely to be the same at the level of interaction with RNA and other protein factors to affect termination; however different species may utilize NusG towards different processes and in combination with different suites of affector proteins.In E. coli, NusG promotes rho-dependent termination. It is an essential gene. In Streptomyces virginiae and related species, an additional N-terminal sequence is also present and is suggested to play a role in butyrolactone-mediated autoregulation. In Thermotoga maritima, NusG has a long insert, fails to substitute for E. coli NusG (with or without the long insert), is a large 0.7 % of total cellular protein, and has a general, sequence non-specific DNA and RNA binding activity that blocks ethidium staining, yet permits transcription.Archaeal proteins once termed NusG share the KOW domain but are actually a ribosomal protein corresponding to L24p in bacterial and L26e in eukaryotes (TIGR00405). [Transcription, Transcription factors]


Pssm-ID: 273341 [Multi-domain]  Cd Length: 172  Bit Score: 167.09  E-value: 2.96e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893    9 WFVLQTYSGYENKVKENLLQRAQTYNMLDNILRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 88
Cdd:TIGR00922   1 WYVVQTYSGYEKKVKQNLEELIELLGMGDYIFEVIVPTEEVVEIKKGKKKVVERKIFPGYVLVKMDLTDVSWHLVKNTPG 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   89 VTGFVGSHGNRSKPTPLleEEIRSILISMGQTVD--VFDTNIKEGDVVQIIDGAFIGQEGRVVEI--ENNKVKLMINMFG 164
Cdd:TIGR00922  81 VTGFVGSGGKPKALSED--EEVKNILNALEEGKDkpKPKIDFEVGEQVRVNDGPFANFTGTVEEVdyEKSKLKVSVSIFG 158

                         170
                  ....*....|..
gi 446809893  165 SETQAELELYQV 176
Cdd:TIGR00922 159 RETPVELEFSQV 170
NGN_Bact_1 cd09891
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The ...
 9-117 3.24e-51

Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; The N-Utilization Substance G (NusG) protein is involved in transcription elongation and termination in bacteria. NusG is essential in Escherichia coli and associates with RNA polymerase elongation and Rho-termination. Homologs of the NusG gene exist in all bacteria. The NusG N-terminal domain (NGN) is similar in all NusG homologs, but its C-terminal domain and the linker that separates these two domains are different. The domain organization of NusG suggests that the common properties of NusG and its homologs are due to their similar NGN domains.


Pssm-ID: 193580 [Multi-domain]  Cd Length: 107  Bit Score: 159.56  E-value: 3.24e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   9 WFVLQTYSGYENKVKENLLQRAQTYNMLDNILRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 88
Cdd:cd09891    2 WYVVHTYSGYENKVKENLEKRIESEGLEDYIGEVLVPTEEVVEVKNGKKKVKERKLFPGYVLVEMDMNDDTWHLVRNTPG 81

                         90       100
                 ....*....|....*....|....*....
gi 446809893  89 VTGFVGSHGnrsKPTPLLEEEIRSILISM 117
Cdd:cd09891   82 VTGFVGSGG---KPVPLSEEEVERILGQV 107
NGN smart00738
In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, ...
 9-114 5.50e-39

In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold; In Spt5p, this domain may confer affinity for Spt4p.Spt4p


Pssm-ID: 197850 [Multi-domain]  Cd Length: 106  Bit Score: 128.64  E-value: 5.50e-39
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893     9 WFVLQTYSGYENKVKENLLQRAQTYNMLDNILRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 88
Cdd:smart00738   2 WYAVRTTSGQEKRVAENLERKAEALGLEDKIVSILVPTEEVKEIRRGKKKVVERKLFPGYIFVEADLEDEVWTAIRGTPG 81

                           90       100
                   ....*....|....*....|....*.
gi 446809893    89 VTGFVGSHGnrsKPTPLLEEEIRSIL 114
Cdd:smart00738  82 VRGFVGGGG---KPTPVPDDEIEKIL 104
NusG pfam02357
Transcription termination factor nusG;
7-114 2.66e-37

Transcription termination factor nusG;


Pssm-ID: 426736 [Multi-domain]  Cd Length: 96  Bit Score: 123.88  E-value: 2.66e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893    7 KGWFVLQTYSGYENKVKENLLQRAqtynmldniLRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNT 86
Cdd:pfam02357   1 KKWYVLQTYSGKEKKVKENLERQG---------IEVFLPTEEVVEIRNGKKKVVERPLFPGYVFVRMDMTDETWHLVRST 71

                          90       100
                  ....*....|....*....|....*...
gi 446809893   87 PNVTGFVGSHGnrsKPTPLLEEEIRSIL 114
Cdd:pfam02357  72 PGVTGFVGGSG---KPTPIPDEEVERIL 96
antiterm_LoaP NF033641
antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The ...
 9-173 1.92e-26

antiterminator LoaP; LoaP is a paralog of NusG with an extensive presence in Firmicutes. The founding member, from Bacillus amyloliquefaciens, was shown to serve as an antiterminator for the transcription of genes involved in antibiotic biosynthesis.


Pssm-ID: 468124 [Multi-domain]  Cd Length: 166  Bit Score: 98.61  E-value: 1.92e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   9 WFVLQTYSGYENKVKENLLQRAQtynmlDNILRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 88
Cdd:NF033641   1 WYVLFVRTGKEEKVKKLLNKLFD-----KELLRCFVPKRKLPERKQGKWYKVIKPLFPGYVFIETDMNEELYYKLKKIPG 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893  89 VTGFVGSHGNRskPTPLLEEEIRSI--LISMGQTVDvFDTNIKEGDVVQIIDGAFIGQEGRVVEIE--NNKVKLMINMFG 164
Cdd:NF033641  76 IIRLLGNEGDE--FSPIPEEEMEFLlkLLNDDDIIE-YSKGYIEGDKVIVISGPLKGLEGIIKKIDkrKRRAKIELNFMG 152


                 ....*....
gi 446809893 165 SETQAELEL 173
Cdd:NF033641 153 EERLVDVGI 161
NusG_myco TIGR01956
NusG family protein; This model represents a family of Mycoplasma proteins orthologous to the ...
 9-127 3.47e-20

NusG family protein; This model represents a family of Mycoplasma proteins orthologous to the bacterial transcription termination/antitermination factor NusG. These sequences from Mycoplasma are notably diverged (long branches in a Neighbor-joining phylogenetic tree) from the bacterial species. And although NusA and ribosomal protein S10 (NusE) appear to be present, NusB may be absent in Mycoplasmas calling into question whether these species have a functional Nus system including this family as a member.


Pssm-ID: 273895 [Multi-domain]  Cd Length: 258  Bit Score: 84.63  E-value: 3.47e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893    9 WFVLQTYSGYENKVKENLLQRAQTYNMLDNILRVEI----------------------------PTQTVNVEKNGKTKEI 60
Cdd:TIGR01956   2 WYIATTINGNEDEVIENIKAKVRALGLENYISDFKIlkereieekvfepkngqaprsmkntattKWETLDETKYKKTKIS 81

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   61 EENRFPGYVLVEMVMTDEAWFVVRNTPNVTGFVGSHGNRSKPTPL-LEEEIRSIL--ISMGQTVDVFDTN 127
Cdd:TIGR01956  82 EKNKYNGYIYIKMIMTEDAWFLIRNTENVTGLVGSSGKGAKPIPIsADADKLKMLkgISENTKKRVLVTN 151
NGN cd08000
N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization ...
 9-114 4.12e-20

N-Utilization Substance G (NusG) N-terminal (NGN) domain Superfamily; The N-Utilization Substance G (NusG) and its eukaryotic homolog Spt5 are involved in transcription elongation and termination. NusG contains an NGN domain at its N-terminus and Kyrpides Ouzounis and Woese (KOW) repeats at its C-terminus in bacteria and archaea. The eukaryotic ortholog, Spt5, is a large protein composed of an acidic N-terminus, an NGN domain, and multiple KOW motifs at its C-terminus. Spt5 forms a Spt4-Spt5 complex that is an essential RNA Polymerase II elongation factor. NusG was originally discovered as an N-dependent antitermination enhancing activity in Escherichia coli and has a variety of functions, such as being involved in RNA polymerase elongation and Rho-termination in bacteria. Orthologs of the NusG gene exist in all bacteria, but its functions and requirements are different. The diverse activities suggest that, after diverging from a common ancestor, NusG proteins became specialized in different bacteria.


Pssm-ID: 193574 [Multi-domain]  Cd Length: 99  Bit Score: 80.06  E-value: 4.12e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   9 WFVLQTYSGYENKVKENLLQRAQtynmlDNILRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 88
Cdd:cd08000    2 WYVLFVKTGREEKVEKLLEKRFE-----ANDIEAFVPKKEVPERKRGKIEEVIKPLFPGYVFVETDLSPELYELIREVPG 76

                         90       100
                 ....*....|....*....|....*.
gi 446809893  89 VTGFVgshGNRSKPTPLLEEEIRSIL 114
Cdd:cd08000   77 VIGIL---GNGEEPSPVSDEEIEMIL 99
KOW_NusG cd06091
NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; KOW_NusG motif ...
 125-176 5.06e-16

NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; KOW_NusG motif is one of the two domains of N-Utilization Substance G (NusG) a transcription elongation and Rho-termination factor in bacteria and archaea. KOW domain is known as an RNA-binding motif that is shared so far among some families of ribosomal proteins, the essential bacterial transcriptional elongation factor NusG, the eukaryotic chromatin elongation factor Spt5, the higher eukaryotic KIN17 proteins and Mtr4. The eukaryotic ortholog of NusG is Spt5 with multiple KOW motifs at its C-terminus.


Pssm-ID: 240515 [Multi-domain]  Cd Length: 56  Bit Score: 68.25  E-value: 5.06e-16
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 446809893 125 DTNIKEGDVVQIIDGAFIGQEGRVVEI--ENNKVKLMINMFGSETQAELELYQV 176
Cdd:cd06091    1 EVDFEVGDTVRIISGPFAGFEGKVEEIdeEKGKVKVLVEMFGRETPVELDFDQV 54
NGN_SP_TaA cd09893
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; ...
 9-115 2.92e-11

N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), TaA; The N-Utilization Substance G (NusG) protein is involved in transcription elongation and termination. NusG is essential in Escherichia coli and is associated with RNA polymerase elongation and Rho-termination in bacteria. Paralogs of eubacterial NusG, NusG SP (Specialized Paralog of NusG), are more diverse and often found as the first ORF in operons encoding secreted proteins and LPS biosynthesis genes. NusG SP family members are operon-specific transcriptional antiterminationn factors. TaA is a NusG SP factor that is required for synthesis of a polyketide antibiotic TA in Myxococcus xanthus. Orthologs of the NusG gene exist in all bacteria, but its functions and requirements are different. The NusG N-terminal (NGN) domain is quite similar in all NusG orthologs, but its C-terminal domains and the linker that separate these two domains are different. The domain organization of NusG and its orthologs suggest that the common properties of NusG and its orthologs and paralogs are due to their similar NGN domains.


Pssm-ID: 193582 [Multi-domain]  Cd Length: 95  Bit Score: 56.93  E-value: 2.92e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   9 WFVLQTYSGYENKVKENLLQRAqtynmldnilrVE--IPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRnT 86
Cdd:cd09893    2 WYALYTRSRHEKKVADRLAKKG-----------IEsfLPLYEVLSRWKDRKKKIKVPLFPGYLFVRFQLDPERLRILK-T 69

                         90       100
                 ....*....|....*....|....*....
gi 446809893  87 PNVTGFVgshGNRSKPTPLLEEEIRSILI 115
Cdd:cd09893   70 PGVVRIV---GNSGGPIPIPDEEIASLRI 95
NGN_SP_RfaH cd09892
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; ...
 9-113 3.30e-10

N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; RfaH is an operon-specific virulence regulator, thought to have arisen from an early duplication of N-Utilization Substance G (NusG). Paralogs of eubacterial NusG, NusG SP (Specialized Paralog of NusG), are more diverse and often found as the first ORF in operons encoding secreted proteins and LPS biosynthesis genes. NusG SP family members are operon-specific transcriptional antitermination factors. NusG is essential in Escherichia coli and is associated with RNA polymerase elongation and Rho-termination in bacteria. In contrast, RfaH is a non-essential protein that controls expression of operons containing an ops (operon polarity suppressor) element in their transcribed DNA. RfaH and NusG are different in their response to Rho-dependent terminators and regulatory targets. The NusG N-terminal (NGN) domain is quite similar in all NusG orthologs, but its C-terminal domains and the linker that separate these two domains are different. The domain organization of NusG and its homologs suggest that the common properties of NusG and RfaH are due to their similar NGN domains.


Pssm-ID: 193581 [Multi-domain]  Cd Length: 96  Bit Score: 54.10  E-value: 3.30e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   9 WFVLQTYSGYENKVKENLLQRA-QTYNmldnilrveiPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTP 87
Cdd:cd09892    2 WYLLYTKPRQEERAAENLERQGfEVFL----------PMIRVEKRRRGKRTVVTEPLFPGYLFVRLDPEVQNWRPIRSTR 71

                         90       100
                 ....*....|....*....|....*.
gi 446809893  88 NVTGFVgSHGNRskPTPLLEEEIRSI 113
Cdd:cd09892   72 GVSRLV-RFGGE--PAPVPDALIEAL 94
NGN_SP_UpxY cd09895
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; ...
 9-93 1.44e-08

N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), UpxY; The N-Utilization Substance G (NusG) proteins are involved in transcription elongation and termination. NusG is essential in Escherichia coli and is associated with RNA polymerase elongation and Rho-termination. Paralogs of eubacterial NusG, NusG SP (Specialized Paralog of NusG), are more diverse and often found as the first ORF in operons encoding secreted proteins and LPS (lipopolysaccharide) biosynthesis genes. NusG SP family members are operon-specific transcriptional antitermination factors. UpxY proteins, UpxY proteins, where the x is replaced by the letter designation of the specific polysaccharide (UpaY to UphY), are a family of NusG SP factors that act specifically in transcriptional antitermination of operons from which they are encoded. UpxYs are necessary and specific for transcription regulation of the polysaccharide biosynthesis operon. Orthologs of the NusG gene exist in all bacteria, but their functions and requirements are different. The NusG N-terminal (NGN) domain is similar in all NusG orthologs, but its C-terminal domain and the linker that separate these two domains are different. The domain organization of NusG and its orthologs suggests that the common properties of NusG and its orthologs and paralogs are due to their similar NGN domains.


Pssm-ID: 193584 [Multi-domain]  Cd Length: 95  Bit Score: 49.88  E-value: 1.44e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   9 WFVLQTYSGYENKVKENLLQRAqtynmldniLRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEmvMTDEAWFVVRNTPN 88
Cdd:cd09895    2 WYALYTFPRREKKVAEYLEKKG---------IECFLPMQYEVRQWSGRKKRVEVPLFPNLVFVH--ITREELDEVLETPG 70


                 ....*
gi 446809893  89 VTGFV 93
Cdd:cd09895   71 VVRFV 75
NGN_plant cd09890
Plant N-Utilization Substance G (NusG) N-terminal (NGN) domain; The N-Utilization Substance G ...
 8-111 3.55e-08

Plant N-Utilization Substance G (NusG) N-terminal (NGN) domain; The N-Utilization Substance G (NusG) protein and its eukaryotic homolog, Spt5, are involved in transcription elongation and termination. NusG contains a NGN domain at its N-terminus and Kyrpides Ouzounis and Woese (KOW) repeats at its C-terminus in bacteria and archaea. The eukaryotic ortholog, Spt5, is a large protein comprising an acidic N-terminus, an NGN domain, and multiple KOW motifs at its C-terminus. Spt5 forms an Spt4-Spt5 complex that is an essential RNA polymerase II elongation factor. The bacterial infected plants contain bacterial DNA, such as NGN sequences, that can be used to clone the DNA of uncultured organisms.


Pssm-ID: 193579  Cd Length: 113  Bit Score: 49.27  E-value: 3.55e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   8 GWFVLQTYSGYENKVKEnLLQRAQTYNMLDNILRVEIPT-QTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNT 86
Cdd:cd09890    1 QWYMLRVPAGRENQAAE-ALERALATEFPDREFEVWVPSiPVDRKLKNGSISVKEKPLFPGYVLLRCVLNKEVYDFIRDN 79

                         90       100       110
                 ....*....|....*....|....*....|....
gi 446809893  87 PNVTGFVGS--------HGNRSKPTPLLE-EEIR 111
Cdd:cd09890   80 DSVYGFVGSkvgktgkrQIEIPRPVPVEEiEAIF 113
NGN_SP cd09886
N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The ...
 9-113 1.53e-07

N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); The N-Utilization Substance G (NusG) protein is involved in transcription elongation and termination. NusG is essential in Escherichia coli and is associated with RNA polymerase elongation and Rho-termination in bacteria. Paralogs of eubacterial NusG, NusG SP (Specialized Paralog of NusG), are more diverse and often found as the first ORF in operons encoding secreted proteins and LPS biosynthesis genes. NusG SP family members are operon-specific transcriptional antitermination factors. The NusG N-terminal (NGN) domain is quite similar in all NusG orthologs, but its C-terminal domains and the linker that separate these two domains are different. The domain organization of NusG and its orthologs suggest that the common properties of NusG and its orthologs and paralogs are due to their similar NGN domains.


Pssm-ID: 193575 [Multi-domain]  Cd Length: 97  Bit Score: 47.36  E-value: 1.53e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   9 WFVLQTYSGYENKVKENLLQRAqtynmldniLRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEM-VMTDEAWFVVRNTP 87
Cdd:cd09886    2 WYALRTNPGCEQRAEEALEARG---------VEAFLPMLTEERKRRRKKFDVERPLFPGYVFARLdRSKGQDTSTIRACD 72

                         90       100
                 ....*....|....*....|....*.
gi 446809893  88 NVTGFVGSHGnrsKPTPLLEEEIRSI 113
Cdd:cd09886   73 GVLGVVGFDG---RPAPVPEQEMRDL 95
NGN_Bact_2 cd09889
Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; The ...
 9-110 9.30e-07

Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 2; The N-Utilization Substance G (NusG) protein is involved in transcription elongation and termination. NusG is essential in Escherichia coli and associates with RNA polymerase elongation and Rho-termination. Paralogs of eubacterial NusG, NusG SP (Specialized Paralog of NusG), are more diverse and often found as the first ORF in operons encoding secreted proteins and LPS biosynthesis genes. NusG SP family members are operon-specific transcriptional antitermination factors. The NusG N-terminal domain (NGN) is quite similar in all NusG orthologs, but its C-terminal domain and the linker that separates these two domains are different. The domain organization of NusG and its orthologs suggests that the common properties of NusG and its orthologs and paralogs are due to their similar NGN domains.


Pssm-ID: 193578 [Multi-domain]  Cd Length: 100  Bit Score: 45.01  E-value: 9.30e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   9 WFVLQTYSGYENKVKEnllqRAQTYNMLDNILRVEIPTQTVNVEKNGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPN 88
Cdd:cd09889    2 WYVVQVRTGREKAVLE----LLEKLVGPDVLQECFIPQYERKKRSQGVWRERKYTLFPGYVFVVTDDIDELYYELKRVPG 77

                         90       100
                 ....*....|....*....|..
gi 446809893  89 VTGFVGSHGNrskPTPLLEEEI 110
Cdd:cd09889   78 FTRLLGNDGS---FFPLTPEEA 96
rfaH PRK09014
transcription/translation regulatory transformer protein RfaH;
27-143 1.12e-05

transcription/translation regulatory transformer protein RfaH;


Pssm-ID: 181611 [Multi-domain]  Cd Length: 162  Bit Score: 43.34  E-value: 1.12e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893  27 LQRAQTYnmLDNiLRVEIPTQTVNVEK--NGKTKEIEENRFPGYVLVEMVMTDEAWFVVRNTPNVTGFVGsHGNRskPTP 104
Cdd:PRK09014  14 LQRAQEH--LER-QGVECLYPMITLEKivRGKRTEVSEPLFPNYLFVEFDPEVIHTTTIRSTRGVSHFVR-FGAQ--PAI 87

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 446809893 105 LLEEEIRSILISMGQTVDVFDTNiKEGDVVQIIDGAFIG 143
Cdd:PRK09014  88 VPSDVIYQLSVYKPEKIVDPETP-KPGDKVIITEGAFEG 125
nusG PRK08559
transcription antitermination protein NusG; Validated
 67-155 1.93e-05

transcription antitermination protein NusG; Validated


Pssm-ID: 181467 [Multi-domain]  Cd Length: 153  Bit Score: 42.55  E-value: 1.93e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893  67 GYVLVEMVMTDEAWFVVRNTPNVTGFVgshgnrSKPTPLleEEIRSILismGQTVDVfdTNIKEGDVVQIIDGAFIGQEG 146
Cdd:PRK08559  47 GYVLVEAESKGAVEEAIRGIPHVRGVV------PGEISF--EEVEHFL---KPKPIV--EGIKEGDIVELIAGPFKGEKA 113


                 ....*....
gi 446809893 147 RVVEIENNK 155
Cdd:PRK08559 114 RVVRVDESK 122
KOW_elon_Spt5 TIGR00405
transcription elongation factor Spt5; This protein contains a KOW domain, shared by bacterial ...
 67-155 1.64e-04

transcription elongation factor Spt5; This protein contains a KOW domain, shared by bacterial NusG and the uL24 (previously L24p/L26e) family of ribosomal proteins. The most recent papers and crystal structures make this a transcription elongation factor rather than a ribosomal protein.


Pssm-ID: 129499 [Multi-domain]  Cd Length: 145  Bit Score: 39.87  E-value: 1.64e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446809893   67 GYVLVEMVMTDEAWFVVRNTPNVTGFVgshgnrskPTPLLEEEIRSILismgqTVDVFDTNIKEGDVVQIIDGAFIGQEG 146
Cdd:TIGR00405  39 GYILVEAETKIDMRNPIIGVPHVRGVV--------EGEIDFEEIERFL-----TPKKIIESIKKGDIVEIISGPFKGERA 105


                  ....*....
gi 446809893  147 RVVEIENNK 155
Cdd:TIGR00405 106 KVIRVDESK 114
KOW smart00739
KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
 127-152 9.03e-04

KOW (Kyprides, Ouzounis, Woese) motif; Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.


Pssm-ID: 128978  Cd Length: 28  Bit Score: 35.38  E-value: 9.03e-04
                           10        20
                   ....*....|....*....|....*.
gi 446809893   127 NIKEGDVVQIIDGAFIGQEGRVVEIE 152
Cdd:smart00739   1 KFEVGDTVRVIAGPFKGKVGKVLEVD 26
KOW pfam00467
KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, ...
 130-160 1.40e-03

KOW motif; This family has been extended to coincide with ref. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and NusG.


Pssm-ID: 425698 [Multi-domain]  Cd Length: 32  Bit Score: 34.67  E-value: 1.40e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 446809893  130 EGDVVQIIDGAFIGQEGRVVEIENNKVKLMI 160
Cdd:pfam00467   1 KGDVVRVIAGPFKGKVGKVVEVDDKKNRVLV 31
rplX_A_E TIGR01080
ribosomal protein uL24, archaeal/eukaryotic form; This model represents the archaeal and ...
 128-160 4.98e-03

ribosomal protein uL24, archaeal/eukaryotic form; This model represents the archaeal and eukaryotic branch of the ribosomal protein L24p/L26e family. Bacterial and organellar forms are represented by related model TIGR01079. [Protein synthesis, Ribosomal proteins: synthesis and modification]


Pssm-ID: 273432  Cd Length: 114  Bit Score: 35.21  E-value: 4.98e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 446809893  128 IKEGDVVQIIDGAFIGQEGRVVEIENNKVKLMI 160
Cdd:TIGR01080  42 IRKGDEVRIVRGDFKGHEGKVSKVDRKRYRIYV 74
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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